9ISW | pdb_00009isw

Crystal structure of AlkR (VanR), a GntR family transcriptional regulator

• PDB DOI: https://doi.org/10.2210/pdb9ISW/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Pseudomonas aeruginosa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-18 Released: 2025-07-23 
• Deposition Author(s): Liang, R., Peng, W.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free: 
  0.222 (Depositor), 0.226 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.201 (DCC) 
• R-Value Observed: 
  0.199 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of AlkR (VanR), a GntR family transcriptional regulator

Liang, R., Peng, W.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: cross-linking, gel filtration

Macromolecule Content 

• Total Structure Weight: 25.1 kDa 
• Atom Count: 1,788 
• Modeled Residue Count: 209 
• Deposited Residue Count: 219 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator	A	219	Pseudomonas aeruginosa	Mutation(s): 0  Gene Names: mcbR_1, ALP65_03525, CAZ10_35765, GUL26_35315, IPC1295_04330, NCTC13621_01527, PAERUG_P19_London_7_VIM_2_05_10_00190
UniProt
Find proteins for Q9I3I7 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I3I7  Go to UniProtKB:  Q9I3I7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free:  0.222 (Depositor), 0.226 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.201 (DCC) 
• R-Value Observed: 0.199 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.544	α = 90
b = 122.544	β = 90
c = 61.22	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data scaling
PDB_EXTRACT	data extraction
HKL-3000	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-23 
Deposition Author(s): Liang, R., Peng, W.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32370107

Revision History  

• Version 1.0: 2025-07-23
  Type: Initial release